BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 044468
(396 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 44/78 (56%), Gaps = 4/78 (5%)
Query: 15 EITRMSLMQNAIQNLTET--PTCPHLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNRS 72
++T++SL QN IQ+L + L L+LH N L ++ N F + L+ L N+
Sbjct: 53 QLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQ- 111
Query: 73 LENLPLGILN-LVSLQHL 89
L+++P GI + L SLQ +
Sbjct: 112 LKSVPDGIFDRLTSLQKI 129
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 6/81 (7%)
Query: 83 LVSLQHLDLSWTGITTLPIELKYLVNLKCLNLEYT------FCLSRIPQPVISDLKMLRA 136
LV+LQ L L WTGI +LP + L NLK L + + + +P+ DL+ A
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 137 LRMFECGFKVEQEADRILFGD 157
LR + F R++ D
Sbjct: 242 LRNYPPIFGGRAPLKRLILKD 262
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 36 PHLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNRSLENLPLGIL-NLVSLQHLDLSWT 94
P+LR L L SNHL T+ F + +L VL+ LYN + + ++ LQ L LS
Sbjct: 88 PNLRYLDLSSNHLHTLDEFLFSDLQALEVLL-LYNNHIVVVDRNAFEDMAQLQKLYLSQN 146
Query: 95 GITTLPIEL 103
I+ P+EL
Sbjct: 147 QISRFPVEL 155
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 35.0 bits (79), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 50/97 (51%), Gaps = 7/97 (7%)
Query: 10 IGMWKEITRMS---LMQNAIQNLTET--PTCPHLRALFLHSNHLGTVSNNFFHSMASLRV 64
I KE+T ++ L N +Q+L +L+ L L N L ++ + F + +L
Sbjct: 78 ISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTY 137
Query: 65 LIFLYNRSLENLPLGILN-LVSLQHLDLSWTGITTLP 100
L +LY+ L++LP G+ + L +L LDL + +LP
Sbjct: 138 L-YLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLP 173
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 34.7 bits (78), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 46/99 (46%), Gaps = 2/99 (2%)
Query: 3 GLTGAPRIGMWKEITRMSLMQNAIQNLT-ETPTCPHLRALFLHSNHLGTVSNNFFHSMAS 61
GL P+ G+ +++T + L N + E HL + L +N + T+SN F +M
Sbjct: 21 GLKVLPK-GIPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQ 79
Query: 62 LRVLIFLYNRSLENLPLGILNLVSLQHLDLSWTGITTLP 100
L LI YNR P L SL+ L L I+ +P
Sbjct: 80 LLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVP 118
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 39/72 (54%), Gaps = 3/72 (4%)
Query: 41 LFLHSNHLGTVSNNFFHSMASLRVLIFLYNRSLENLPLGILN-LVSLQHLDLSWTGITTL 99
L+LH N + + F S+ +L+ L +L + L LP+G+ + L L LDL +T L
Sbjct: 45 LYLHDNQITKLEPGVFDSLINLKEL-YLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVL 103
Query: 100 PIEL-KYLVNLK 110
P + LV+LK
Sbjct: 104 PSAVFDRLVHLK 115
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 34/87 (39%), Gaps = 23/87 (26%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVL-----------------------IFLYNRSL 73
+L+ L+L SN LG + F S+ L VL +F+ L
Sbjct: 65 NLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKL 124
Query: 74 ENLPLGILNLVSLQHLDLSWTGITTLP 100
LP GI L L HL L + ++P
Sbjct: 125 TELPRGIERLTHLTHLALDQNQLKSIP 151
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 66 IFLYNRSLENLPLGILNLVSLQHLDLSWTGITTLPIELKYLVNLKCLNLEYTFCLSRI 123
++L SL LP I NL +L+ LDLS +T+LP EL C L+Y + +
Sbjct: 252 LYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELG-----SCFQLKYFYFFDNM 304
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 38 LRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNRSLENLPLGILNLVSLQHLDLSWTGIT 97
L L+L+ N L + ++++LRVL +NR L +LP + + L++ +T
Sbjct: 249 LTRLYLNGNSLTELPAEI-KNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFDNMVT 306
Query: 98 TLPIELKYLVNLKCLNLE 115
TLP E L NL+ L +E
Sbjct: 307 TLPWEFGNLCNLQFLGVE 324
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 23/105 (21%)
Query: 20 SLMQNAIQNLTETPT--CPHLRALFLHSNHLGTVSNNFFHSMASLRVL------------ 65
S++ + +NLT P P +AL L N + + ++ LRVL
Sbjct: 34 SMVDYSNRNLTHVPKDLPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDF 93
Query: 66 -IFLYNRSLENLP--------LGILNLVSLQHLDLSWTGITTLPI 101
+FL+N+ LE L + + SL+HLDLS+ LP+
Sbjct: 94 HVFLFNQDLEYLDVSHNRLQNISCCPMASLRHLDLSFNDFDVLPV 138
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 2/84 (2%)
Query: 21 LMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNRSLENLPL 78
L NA+Q L + +L LFLH N + +V F + SL L+ NR P
Sbjct: 135 LQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPH 194
Query: 79 GILNLVSLQHLDLSWTGITTLPIE 102
+L L L L ++ LP E
Sbjct: 195 AFRDLGRLMTLYLFANNLSALPTE 218
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 2/84 (2%)
Query: 21 LMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNRSLENLPL 78
L NA+Q L + +L LFLH N + +V F + SL L+ NR P
Sbjct: 136 LQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPH 195
Query: 79 GILNLVSLQHLDLSWTGITTLPIE 102
+L L L L ++ LP E
Sbjct: 196 AFRDLGRLMTLYLFANNLSALPTE 219
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 31.6 bits (70), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 36/127 (28%), Positives = 56/127 (44%), Gaps = 24/127 (18%)
Query: 3 GLTGAPRIGMWKEITRMSLMQNAIQNL--TETPTCPHLRALFLHSNHLGTVSNNFFHSMA 60
GL P+ + ++ T +++ QN I L ++ + LR L + N +
Sbjct: 11 GLIHVPK-DLSQKTTILNISQNYISELWTSDILSLSKLRILIISHNRI-----------Q 58
Query: 61 SLRVLIFLYNRSLENLPLGILNLV--------SLQHLDLSWTGITTLPI--ELKYLVNLK 110
L + +F +N+ LE L L LV +L+HLDLS+ LPI E + LK
Sbjct: 59 YLDISVFKFNQELEYLDLSHNKLVKISCHPTVNLKHLDLSFNAFDALPICKEFGNMSQLK 118
Query: 111 CLNLEYT 117
L L T
Sbjct: 119 FLGLSTT 125
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 31.6 bits (70), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 2/90 (2%)
Query: 13 WKEITRMSLMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYN 70
+ ++ +++L QN I + + HL L L N LG++ + F ++ L VL YN
Sbjct: 298 FTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYN 357
Query: 71 RSLENLPLGILNLVSLQHLDLSWTGITTLP 100
L L +L+ L L + ++P
Sbjct: 358 HIRALGDQSFLGLPNLKELALDTNQLKSVP 387
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 25/88 (28%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNR--SLENLPLGIL------------- 81
HL L L N + +++ F ++SL+ L+ L SLEN P+G L
Sbjct: 79 HLSTLILTGNPIQSLALGAFSGLSSLQKLVALETNLASLENFPIGHLKTLKELNVAHNLI 138
Query: 82 ----------NLVSLQHLDLSWTGITTL 99
NL +L+HLDLS I ++
Sbjct: 139 QSFKLPEYFSNLTNLEHLDLSSNKIQSI 166
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 50/111 (45%), Gaps = 3/111 (2%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNRSLENLPLG-ILNLVSLQHLDLSWTG 95
HL L L NH+ T+ F+ +A+L L NR L +P G + L L+ L L
Sbjct: 89 HLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNR-LTTIPNGAFVYLSKLKELWLRNNP 147
Query: 96 ITTLP-IELKYLVNLKCLNLEYTFCLSRIPQPVISDLKMLRALRMFECGFK 145
I ++P + +L+ L+L LS I + L LR L + C +
Sbjct: 148 IESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLR 198
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 25/88 (28%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNR--SLENLPLGIL------------- 81
HL L L N + +++ F ++SL+ L+ + SLEN P+G L
Sbjct: 77 HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 136
Query: 82 ----------NLVSLQHLDLSWTGITTL 99
NL +L+HLDLS I ++
Sbjct: 137 QSFKLPEYFSNLTNLEHLDLSSNKIQSI 164
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 25/88 (28%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNR--SLENLPLGIL------------- 81
HL L L N + +++ F ++SL+ L+ + SLEN P+G L
Sbjct: 78 HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 137
Query: 82 ----------NLVSLQHLDLSWTGITTL 99
NL +L+HLDLS I ++
Sbjct: 138 QSFKLPEYFSNLTNLEHLDLSSNKIQSI 165
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 25/88 (28%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNR--SLENLPLGIL------------- 81
HL L L N + +++ F ++SL+ L+ + SLEN P+G L
Sbjct: 79 HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 138
Query: 82 ----------NLVSLQHLDLSWTGITTL 99
NL +L+HLDLS I ++
Sbjct: 139 QSFKLPEYFSNLTNLEHLDLSSNKIQSI 166
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 25/88 (28%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNR--SLENLPLGIL------------- 81
HL L L N + +++ F ++SL+ L+ + SLEN P+G L
Sbjct: 78 HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLI 137
Query: 82 ----------NLVSLQHLDLSWTGITTL 99
NL +L+HLDLS I ++
Sbjct: 138 QSFKLPEYFSNLTNLEHLDLSSNKIQSI 165
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 52/121 (42%), Gaps = 27/121 (22%)
Query: 6 GAPRIGMWKEITRMSLMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHSMASLR 63
G+ + E+ + L + IQ + + + HL L L N + +++ F ++SL+
Sbjct: 44 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 103
Query: 64 VLIFLYNR--SLENLPLGIL-----------------------NLVSLQHLDLSWTGITT 98
L+ + SLEN P+G L NL +L+HLDLS I +
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 99 L 99
+
Sbjct: 164 I 164
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 52/121 (42%), Gaps = 27/121 (22%)
Query: 6 GAPRIGMWKEITRMSLMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHSMASLR 63
G+ + E+ + L + IQ + + + HL L L N + +++ F ++SL+
Sbjct: 68 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 127
Query: 64 VLIFLYNR--SLENLPLGIL-----------------------NLVSLQHLDLSWTGITT 98
L+ + SLEN P+G L NL +L+HLDLS I +
Sbjct: 128 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 187
Query: 99 L 99
+
Sbjct: 188 I 188
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 52/121 (42%), Gaps = 27/121 (22%)
Query: 6 GAPRIGMWKEITRMSLMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHSMASLR 63
G+ + E+ + L + IQ + + + HL L L N + +++ F ++SL+
Sbjct: 44 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 103
Query: 64 VLIFLYNR--SLENLPLGIL-----------------------NLVSLQHLDLSWTGITT 98
L+ + SLEN P+G L NL +L+HLDLS I +
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 99 L 99
+
Sbjct: 164 I 164
>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
Length = 606
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 26/113 (23%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNR--SLENLPLGIL------------- 81
HL L L N + + S F + SL L+ + + SLE+ P+G L
Sbjct: 81 HLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFI 140
Query: 82 ----------NLVSLQHLDLSWTGITTLPI-ELKYLVNLKCLNLEYTFCLSRI 123
NL +L H+DLS+ I T+ + +L++L +NL L+ I
Sbjct: 141 HSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPI 193
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 26/113 (23%)
Query: 37 HLRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNR--SLENLPLGIL------------- 81
HL L L N + + S F + SL L+ + + SLE+ P+G L
Sbjct: 76 HLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFI 135
Query: 82 ----------NLVSLQHLDLSWTGITTLPI-ELKYLVNLKCLNLEYTFCLSRI 123
NL +L H+DLS+ I T+ + +L++L +NL L+ I
Sbjct: 136 HSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPI 188
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 48/117 (41%), Gaps = 28/117 (23%)
Query: 1 GAGLTGAPRIGMWKEITRMSLMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHS 58
L P G+ + + + L N I ++ + C +L+AL L SN + T+ + F S
Sbjct: 14 SGSLNSIPS-GLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSS 72
Query: 59 MASLRVLIFLYNRSLENLPLGILNLVSLQHLDLSWTGITTLPIE-LKYLVNLKCLNL 114
+ SL +HLDLS+ ++ L K L +L LNL
Sbjct: 73 LGSL------------------------EHLDLSYNYLSNLSSSWFKPLSSLTFLNL 105
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 46/107 (42%), Gaps = 27/107 (25%)
Query: 11 GMWKEITRMSLMQNAIQNLTETP--TCPHLRALFLHSNHLGTVSNNFFHSMASLRVLIFL 68
G+ + + + L N I ++ + C +L+AL L SN + T+ + F S+ SL
Sbjct: 49 GLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSL------ 102
Query: 69 YNRSLENLPLGILNLVSLQHLDLSWTGITTLPIE-LKYLVNLKCLNL 114
+HLDLS+ ++ L K L +L LNL
Sbjct: 103 ------------------EHLDLSYNYLSNLSSSWFKPLSSLTFLNL 131
>pdb|2PMZ|B Chain B, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|R Chain R, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|B Chain B, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|J Chain J, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 1124
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 277 RAKVIRISNCQRLQEIISMEKLGEISAEVMDNLILFGRLEYLILEGLQN 325
R +I +SN L I +EKL E A D+L+ G++EYL E +N
Sbjct: 576 RRPLIIVSNGNPLVTIEDIEKL-ESGAITFDDLVRQGKIEYLDAEEEEN 623
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 2/75 (2%)
Query: 38 LRALFLHSNHLGTVSNNFFHSMASLRVLIFLYNRSLENLPLGILNLVSLQHLDLSWTGIT 97
L LFLH N + +V + F + SL L+ N P +L L L L ++
Sbjct: 154 LTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLS 213
Query: 98 TLPIELKYLVNLKCL 112
LP E+ LV L+ L
Sbjct: 214 MLPAEV--LVPLRSL 226
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.325 0.139 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,041,753
Number of Sequences: 62578
Number of extensions: 362124
Number of successful extensions: 965
Number of sequences better than 100.0: 52
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 44
Number of HSP's that attempted gapping in prelim test: 912
Number of HSP's gapped (non-prelim): 84
length of query: 396
length of database: 14,973,337
effective HSP length: 101
effective length of query: 295
effective length of database: 8,652,959
effective search space: 2552622905
effective search space used: 2552622905
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)